PFRMAT SS
TARGET T0163
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0163.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0163.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0163.t2k.str.rdb  (weight 1.53983)
METHOD T0163.t2k.alpha.rdb  (weight 0.659012)
METHOD These files were combined by translating their predictions into EHL
METHOD predictions with tables generated by compare-real, and then combining
METHOD those predictions with weights proportional to their mutual information
METHOD with the EHL alphabet.  The comments from the individual files follow.
METHOD
METHOD Comments from T0163.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0163
METHOD Using neural net t2k-5740-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.net
METHOD This is a 4-layer network, with 
METHOD	window	units
METHOD	    5	   15
METHOD	    7	   15
METHOD	    9	   15
METHOD	   13	    7 (1 EBGHSTL )
METHOD The input amino acid frequencies were determined from
METHOD alignment T0163.t2k-thin90.a2m.gz
METHOD with weighted counts, using HenikoffWeight(-1 bits/column, 1)
METHOD Counts were regularized to probabilities using
METHOD /projects/compbio/lib/recode3.20comp
METHOD Total sequence weight for alignment was 570
METHOD
METHOD ============================================
METHOD Comments from T0163.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0163
METHOD Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghtl-seeded.net
METHOD This is a 4-layer network, with 
METHOD	window	units
METHOD	    5	   15
METHOD	    7	   15
METHOD	    9	   15
METHOD	   13	    6 (1 EBGHTL )
METHOD The input amino acid frequencies were determined from
METHOD alignment T0163.t2k-thin90.a2m.gz
METHOD with weighted counts, using HenikoffWeight(-1 bits/column, 1)
METHOD Counts were regularized to probabilities using
METHOD /projects/compbio/lib/recode3.20comp
METHOD Total sequence weight for alignment was 570
METHOD
METHOD ============================================
METHOD Comments from T0163.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0163
METHOD Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-str-seeded.net
METHOD This is a 4-layer network, with 
METHOD	window	units
METHOD	    5	   15
METHOD	    7	   15
METHOD	    9	   15
METHOD	   13	   13 (1 str )
METHOD The input amino acid frequencies were determined from
METHOD alignment T0163.t2k-thin90.a2m.gz
METHOD with weighted counts, using HenikoffWeight(-1 bits/column, 1)
METHOD Counts were regularized to probabilities using
METHOD /projects/compbio/lib/recode3.20comp
METHOD Total sequence weight for alignment was 570
METHOD
METHOD ============================================
METHOD Comments from T0163.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0163
METHOD Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-alpha-seeded.net
METHOD This is a 4-layer network, with 
METHOD	window	units
METHOD	    5	   15
METHOD	    7	   15
METHOD	    9	   15
METHOD	   13	   11 (1 ABCDEFGHIST )
METHOD The input amino acid frequencies were determined from
METHOD alignment T0163.t2k-thin90.a2m.gz
METHOD with weighted counts, using HenikoffWeight(-1 bits/column, 1)
METHOD Counts were regularized to probabilities using
METHOD /projects/compbio/lib/recode3.20comp
METHOD Total sequence weight for alignment was 570
METHOD
METHOD ============================================
MODEL 1
M C 0.92
K C 0.86
R C 0.78
H C 0.78
Y C 0.71
E C 0.53
A E 0.92
V E 0.93
V E 0.93
I E 0.84
G C 0.69
G C 0.87
G C 0.68
I H 0.89
I H 0.93
G H 0.95
S H 0.96
A H 0.96
I H 0.96
A H 0.96
Y H 0.96
Y H 0.96
L H 0.95
A H 0.95
K H 0.88
E C 0.62
N C 0.94
K C 0.91
N C 0.52
T E 0.91
A E 0.93
L E 0.93
F E 0.90
E E 0.73
S C 0.66
G C 0.84
T C 0.81
M C 0.78
G C 0.79
G C 0.76
R C 0.70
T C 0.59
T C 0.52
S C 0.50
A C 0.51
A C 0.54
A C 0.57
G C 0.60
M C 0.45
L E 0.46
G C 0.56
A C 0.61
H C 0.65
A C 0.62
E C 0.66
C C 0.71
E C 0.73
E C 0.69
R C 0.66
D H 0.69
A H 0.80
F H 0.85
F H 0.87
D H 0.88
F H 0.88
A H 0.89
M H 0.92
H H 0.90
S H 0.90
Q H 0.91
R H 0.91
L H 0.90
Y H 0.90
K H 0.90
G H 0.88
L H 0.86
G H 0.82
E H 0.80
E H 0.76
L H 0.65
Y H 0.63
A H 0.56
L H 0.48
S C 0.61
G C 0.72
V C 0.69
D C 0.69
I C 0.63
R C 0.57
Q E 0.48
H E 0.48
N C 0.52
G C 0.69
G C 0.74
M E 0.52
F E 0.77
K E 0.79
L E 0.73
A E 0.53
F C 0.74
S C 0.86
E H 0.64
E H 0.71
D H 0.77
V H 0.81
L H 0.81
Q H 0.82
L H 0.81
R H 0.82
Q H 0.78
M H 0.70
D H 0.56
D C 0.58
L C 0.75
D C 0.78
S C 0.73
V C 0.59
S C 0.49
W C 0.51
Y C 0.75
S C 0.88
K H 0.90
E H 0.91
E H 0.90
V H 0.90
L H 0.84
E H 0.72
K H 0.58
E C 0.63
P C 0.65
Y C 0.67
A C 0.71
S C 0.78
G C 0.72
D C 0.71
I C 0.56
F C 0.45
G E 0.52
A E 0.61
S E 0.67
F E 0.67
I C 0.51
Q C 0.70
D C 0.78
D C 0.70
V C 0.60
H E 0.48
V C 0.52
E C 0.80
P H 0.85
Y H 0.93
F H 0.94
V H 0.94
C H 0.95
K H 0.96
A H 0.96
Y H 0.96
V H 0.96
K H 0.96
A H 0.96
A H 0.96
K H 0.94
M H 0.88
L C 0.71
G C 0.94
A C 0.86
E E 0.76
I E 0.83
F E 0.77
E E 0.50
H C 0.78
T C 0.74
P E 0.55
V E 0.79
L E 0.81
H E 0.86
V E 0.87
E E 0.85
R E 0.74
D C 0.56
G C 0.86
E C 0.73
A E 0.77
L E 0.89
F E 0.92
I E 0.92
K E 0.91
T E 0.74
P C 0.78
S C 0.92
G C 0.78
D E 0.73
V E 0.87
W E 0.83
A E 0.79
N E 0.70
H E 0.88
V E 0.92
V E 0.92
V E 0.89
A E 0.58
S C 0.75
G C 0.83
V C 0.65
W C 0.55
S H 0.60
G H 0.71
M H 0.73
F H 0.77
F H 0.77
K H 0.75
Q H 0.72
L C 0.52
G C 0.84
L C 0.82
N C 0.82
N C 0.82
A C 0.78
F C 0.63
L C 0.56
P C 0.59
V C 0.54
K C 0.56
G C 0.49
E E 0.79
C E 0.90
L E 0.91
S E 0.90
V E 0.81
W E 0.54
N C 0.71
D C 0.82
D C 0.81
I C 0.80
P C 0.74
L C 0.67
T C 0.57
K E 0.54
T E 0.65
L E 0.66
Y C 0.60
H C 0.79
D C 0.86
H C 0.69
C E 0.67
Y E 0.87
I E 0.90
V E 0.89
P E 0.83
R E 0.48
K C 0.83
S C 0.91
G C 0.90
R E 0.51
L E 0.86
V E 0.89
V E 0.86
G E 0.69
A E 0.48
T C 0.59
M C 0.60
K C 0.60
P C 0.66
G C 0.78
D C 0.82
W C 0.81
S C 0.82
E C 0.79
T C 0.82
P C 0.85
D C 0.88
L H 0.88
G H 0.91
G H 0.92
L H 0.94
E H 0.94
S H 0.94
V H 0.94
M H 0.95
K H 0.95
K H 0.94
A H 0.94
K H 0.92
T H 0.87
M H 0.78
L H 0.51
P H 0.52
A C 0.49
I C 0.53
Q C 0.63
N C 0.63
M C 0.66
K C 0.57
V E 0.41
D E 0.51
R E 0.59
F E 0.54
W E 0.52
A E 0.46
G C 0.52
L E 0.49
R E 0.51
P C 0.60
G C 0.64
T C 0.82
K C 0.84
D C 0.87
G C 0.85
K C 0.77
P C 0.53
Y E 0.58
I E 0.55
G C 0.53
R C 0.55
H C 0.69
P C 0.77
E C 0.85
D C 0.79
S C 0.83
R C 0.82
I E 0.68
L E 0.88
F E 0.89
A E 0.83
A E 0.60
G C 0.65
H C 0.72
F C 0.79
R C 0.74
N C 0.70
G C 0.56
I H 0.51
L H 0.54
L H 0.61
A H 0.73
P H 0.93
A H 0.95
T H 0.95
G H 0.96
A H 0.96
L H 0.96
I H 0.96
S H 0.96
D H 0.96
L H 0.95
I H 0.92
M H 0.69
N C 0.73
K C 0.90
E C 0.86
V C 0.82
N C 0.78
Q C 0.61
D C 0.58
W C 0.54
L C 0.58
H C 0.65
A C 0.66
F C 0.75
R C 0.82
I C 0.51
D C 0.50
R C 0.48
K C 0.75
E C 0.83
A C 0.66
V C 0.66
Q C 0.71
I C 0.91
END